The Organizational Hub and Web Portal for the 4D Nucleome Network

4D 核组网络的组织中心和门户网站

• 批准号: 8988647
• 负责人: SHU CHIEN
• 金额: $ 163.71万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN DIEGO
• 依托单位国家: 美国
• 财政年份: 2015
• 资助国家: 美国
• 起止时间: 2015-09-01 至 2020-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8988647
• 关键词: Advertising; Architecture; Area; Behavior; Cell Nucleus; Cells; Chromatin; Cognition; Communities; Community Networks; Consensus; Data; Data Analyses; Data Quality; Data Set; Data Storage and Retrieval; Databases; Development; Dimensions; Disease; E-learning; Education; Education and Outreach; Educational workshop; Evaluation; Feedback; Funding; Gene Expression; Genes; Goals; Grant; Imagery; Internet; Joints; Manuals; Measures; Methods; Newsletter; Nuclear; Nucleic Acid Regulatory Sequences; Ontology; Play; Privacy; Process; Progress Reports; Protocols documentation; Publishing; Recommendation; Recording of previous events; Records Controls; Reproducibility; Research; Resources; Retrieval; Role; Side; Structure; Students; System; Systems Analysis; Technology; Time; TimeLine; Training; Training Programs; United States National Institutes of Health; Update; Variant; Work; Writing; cohort; comparative; data exchange; data format; data management; epigenomics; experience; meetings; member; new technology; outreach; programs; public health relevance; repository; sample collection; spatiotemporal; statistics; symposium; three dimensional structure; tool; user-friendly; virtual; web site; working group

 DESCRIPTION (provided by applicant): Recent technological developments have significantly advanced our understanding of the three-dimensional organization of the nucleus. It has also become increasingly clear that the 3D nucleome plays an important role in regulating gene expression. Large cohorts of data are being generated to investigate the impact of the temporal changes of nuclear organization (the 4D nucleome) to normal development and disease processes. The primary goal of this proposal is the creation of an effective organizational hub and web portal for the 4D nucleome. We also propose to develop an effective coordination structure for the 4D nucleome activities. First, we will develop and organize effective networking methods and consortium meetings for establishing protocols and standards. We will develop a framework for coordination of the funded 4D nucleome projects. We will organize annual consortium-wide grantees meeting. We will utilize the professional organizers who have previously worked with the PIs and the premium conference venues at Atkinson Hall in UCSD (http://www.calit2.net). Two major activities will be organized during the annual meeting. Second, we will develop an adaptable, scalable, and user-friendly 4DN web portal. We will build the 4DN Network community web portal and a Virtual Resource Repository. This portal will be an integrated, versatile, and inter-operable data management, retrieval, analysis, and visualization system. We will leverage the ENCODE Comparative Browser (http://encode.cepbrowser.org) for developing the 4D network portal. In addition, the portal will incorporate data generated from outside the consortium, publish E-manuals for the consortium-agreed protocols, and provide the most up-to-date information on the data clearance. Third, we will coordinate and manage the 4DN Network Opportunity Pool. The opportunity pool of funds will be distributed and managed with 100% transparency. Competitive distribution with the funds will be coordinated by a professional manager with extensive experience in managing Center and Training Grants. Fourth, we will develop a comprehensive strategy for training and outreach. The proposed unit will aim to regularly train and update 4DN research network members and collaborators in several key areas including: 1) new technologies; 2) data/sample collection protocols; 3) data analysis methods; 4) data submission protocols; 5) data retrieval methods; 6) data QA/QC; 7) data exchange standards and data ontologies; 8) the contents of different 4DN and public databases; 9) data privacy and 10) data dissemination.

 描述（由申请人提供）：最近的技术发展极大地促进了我们对细胞核三维组织的理解，并且越来越清楚的是，3D 核组在调节基因表达中发挥着重要作用。该提案旨在研究核组织（4D 核组）的时间变化对正常发育和疾病过程的影响。该提案的主要目标是为 4D 核组创建有效的组织中心和门户网站。我们还建议为 4D 核组活动建立有效的协调结构。首先，我们将制定和组织有效的网络方法和联盟会议，以建立协议和标准。我们将制定协调资助的 4D 核组项目的框架。我们将利用以前与 PI 合作过的专业组织者以及加州大学圣地亚哥分校阿特金森大厅 (http://www.calit2.net) 的高级会议场地来组织年度联盟范围内的受资助者会议。其次，我们将开发一个适应性强、可扩展且用户友好的 4DN 门户网站。我们将构建 4DN 网络社区门户网站和虚拟资源存储库。该门户网站将是一个集成的、多功能的、互操作的。 -可操作的数据管理、检索、分析和可视化系统，我们将利用 ENCODE 比较浏览器 (http://encode.cepbrowser.org) 来开发 4D 网络门户。整合联盟外部产生的数据，发布联盟同意的协议的电子手册，并提供有关数据清理的最新信息。第三，我们将协调和管理4DN网络机会池。资金的分配和管理将 100% 透明，资金的分配将由在管理中心和培训补助金方面拥有丰富经验的专业经理进行协调。第四，我们将制定全面的培训和推广战略。该部门的目标是定期对 4DN 研究网络成员和合作者进行以下几个关键领域的培训和更新：1）新技术；2）数据/样本收集方法；4）数据提交方法； ； 6）数据质量保证/质量控制； 7）数据交换标准和数据本体； 8）不同 4DN 和公共数据库的内容； 9）数据隐私和 10）数据传播。